Mouse Gene Bcl3 (ENSMUST00000120537.7) from GENCODE VM23 Comprehensive Transcript Set (only Basic displayed by default)
  Description: Mus musculus B cell leukemia/lymphoma 3 (Bcl3), mRNA. (from RefSeq NM_033601)
Gencode Transcript: ENSMUST00000120537.7
Gencode Gene: ENSMUSG00000053175.17
Transcript (Including UTRs)
   Position: mm10 chr7:19,808,462-19,822,770 Size: 14,309 Total Exon Count: 9 Strand: -
Coding Region
   Position: mm10 chr7:19,808,872-19,822,677 Size: 13,806 Coding Exon Count: 9 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDRNA Structure
Protein StructureOther SpeciesGO AnnotationsmRNA DescriptionsOther NamesModel Information
Methods
Data last updated at UCSC: 2019-09-19

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr7:19,808,462-19,822,770)mRNA (may differ from genome)Protein (448 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGeneCardsMGI
PubMedSOURCEUniProtKBWikipedia

-  Comments and Description Text from UniProtKB
  ID: BCL3_MOUSE
DESCRIPTION: RecName: Full=B-cell lymphoma 3 protein homolog; Short=BCL-3;
FUNCTION: Contributes to the regulation of transcriptional activation of NF-kappa-B target genes. In the cytoplasm, inhibits the nuclear translocation of the NF-kappa-B p50 subunit (By similarity). In the nucleus, acts as transcriptional activator that promotes transcription of NF-kappa-B target genes. Contributes to the regulation of cell proliferation.
SUBUNIT: Component of a complex consisting of the NF-kappa-B p52- p52 homodimer and BCL3. Component of a complex consisting of the NF-kappa-B p50-p50 homodimer and BCL3. Interacts with N4BP2, COPS5 and PIR (By similarity). Interacts with CYLD.
INTERACTION: Q80TQ2:Cyld; NbExp=4; IntAct=EBI-943884, EBI-943859;
SUBCELLULAR LOCATION: Nucleus. Cytoplasm. Cytoplasm, perinuclear region. Note=Ubiquitination via 'Lys-63'-linked ubiquitin chains is required for nuclear accumulation.
PTM: Polyubiquitinated. Ubiquitination via 'Lys-63'-linked ubiquitin chains is required for nuclear accumulation. Deubiquitinated by CYLD, which acts on 'Lys-63'-linked ubiquitin chains. Deubiquitination by CYLD prevents nuclear accumulation.
PTM: Activated by phosphorylation (By similarity).
SIMILARITY: Contains 7 ANK repeats.
CAUTION: It is uncertain whether Met-1 or Met-9 is the initiator.
SEQUENCE CAUTION: Sequence=AAC79694.1; Type=Erroneous initiation; Note=Translation N-terminally extended;

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -43.3093-0.466 Picture PostScript Text
3' UTR -137.20410-0.335 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR002110 - Ankyrin_rpt
IPR020683 - Ankyrin_rpt-contain_dom

Pfam Domains:
PF00023 - Ankyrin repeat
PF12796 - Ankyrin repeats (3 copies)
PF13606 - Ankyrin repeat
PF13637 - Ankyrin repeats (many copies)
PF13857 - Ankyrin repeats (many copies)

SCOP Domains:
140860 - Pseudo ankyrin repeat-like
48403 - Ankyrin repeat

ModBase Predicted Comparative 3D Structure on Q9Z2F6
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-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
HumanRatZebrafishD. melanogasterC. elegansS. cerevisiae
Genome BrowserGenome BrowserNo orthologNo orthologGenome BrowserNo ortholog
Gene Details     
Gene Sorter     
GenBankRGDEnsembl WormBase 
Protein SequenceProtein Sequence  Protein Sequence 
AlignmentAlignment  Alignment 

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003677 DNA binding
GO:0003700 transcription factor activity, sequence-specific DNA binding
GO:0005515 protein binding
GO:0008134 transcription factor binding

Biological Process:
GO:0000060 protein import into nucleus, translocation
GO:0002268 follicular dendritic cell differentiation
GO:0002315 marginal zone B cell differentiation
GO:0002455 humoral immune response mediated by circulating immunoglobulin
GO:0002467 germinal center formation
GO:0006351 transcription, DNA-templated
GO:0006355 regulation of transcription, DNA-templated
GO:0006974 cellular response to DNA damage stimulus
GO:0007249 I-kappaB kinase/NF-kappaB signaling
GO:0009615 response to virus
GO:0010225 response to UV-C
GO:0019730 antimicrobial humoral response
GO:0030198 extracellular matrix organization
GO:0030330 DNA damage response, signal transduction by p53 class mediator
GO:0032729 positive regulation of interferon-gamma production
GO:0042088 T-helper 1 type immune response
GO:0042536 negative regulation of tumor necrosis factor biosynthetic process
GO:0042742 defense response to bacterium
GO:0042771 intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator
GO:0042832 defense response to protozoan
GO:0042981 regulation of apoptotic process
GO:0043066 negative regulation of apoptotic process
GO:0045064 T-helper 2 cell differentiation
GO:0045082 positive regulation of interleukin-10 biosynthetic process
GO:0045415 negative regulation of interleukin-8 biosynthetic process
GO:0045727 positive regulation of translation
GO:0045892 negative regulation of transcription, DNA-templated
GO:0045893 positive regulation of transcription, DNA-templated
GO:0045944 positive regulation of transcription from RNA polymerase II promoter
GO:0046426 negative regulation of JAK-STAT cascade
GO:0048536 spleen development
GO:0051101 regulation of DNA binding
GO:1901222 regulation of NIK/NF-kappaB signaling

Cellular Component:
GO:0005634 nucleus
GO:0005654 nucleoplasm
GO:0005737 cytoplasm
GO:0005829 cytosol
GO:0005886 plasma membrane
GO:0030496 midbody
GO:0032991 macromolecular complex
GO:0032996 Bcl3-Bcl10 complex
GO:0033257 Bcl3/NF-kappaB2 complex
GO:0043231 intracellular membrane-bounded organelle
GO:0048471 perinuclear region of cytoplasm


-  Descriptions from all associated GenBank mRNAs
  BC021610 - Mus musculus B-cell leukemia/lymphoma 3, mRNA (cDNA clone IMAGE:5100184), containing frame-shift errors.
M90397 - Mouse bcl-3 mRNA, 3' flank.
AF067774 - Mus musculus BCL3 (Bcl3) mRNA, complete cds.
AK155016 - Mus musculus NOD-derived CD11c +ve dendritic cells cDNA, RIKEN full-length enriched library, clone:F630116A22 product:B-cell leukemia/lymphoma 3, full insert sequence.
BC156806 - Synthetic construct Mus musculus clone IMAGE:100062511, MGC:190901 B-cell leukemia/lymphoma 3 (Bcl3) mRNA, encodes complete protein.

-  Other Names for This Gene
  Alternate Gene Symbols: BCL3_MOUSE, NM_033601, Q9Z2F6, uc009fnk.1, uc009fnk.2, uc009fnk.3
UCSC ID: uc009fnk.3
RefSeq Accession: NM_033601
Protein: Q9Z2F6 (aka BCL3_MOUSE)
CCDS: CCDS20914.2

-  Gene Model Information
  Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.